miRNA display CGI


Results 1 - 20 of 23 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
13433 3' -52.3 NC_003409.1 + 100565 0.66 0.979479
Target:  5'- --aCCUugGUCaCGAAGGUACuguGGaCACu -3'
miRNA:   3'- gcaGGGugCAG-GUUUCUAUGu--CC-GUG- -5'
13433 3' -52.3 NC_003409.1 + 132343 0.66 0.97709
Target:  5'- aGUCCCGUGUCCAAgcuccaGGAcguagUGCuaacuGGCGCc -3'
miRNA:   3'- gCAGGGUGCAGGUU------UCU-----AUGu----CCGUG- -5'
13433 3' -52.3 NC_003409.1 + 38136 0.66 0.97709
Target:  5'- uGUCCgGCGccgCCucuuGAGcugcGCAGGCGCg -3'
miRNA:   3'- gCAGGgUGCa--GGu---UUCua--UGUCCGUG- -5'
13433 3' -52.3 NC_003409.1 + 30265 0.66 0.974503
Target:  5'- aCGUCCU-CGUCCAuuguGGAcggucaccaGGGCACa -3'
miRNA:   3'- -GCAGGGuGCAGGUu---UCUaug------UCCGUG- -5'
13433 3' -52.3 NC_003409.1 + 101985 0.66 0.971709
Target:  5'- ----gCGCGUUCuuuGGAUACGGGCAUg -3'
miRNA:   3'- gcaggGUGCAGGuu-UCUAUGUCCGUG- -5'
13433 3' -52.3 NC_003409.1 + 21405 0.67 0.958329
Target:  5'- -aUCCCAC-UCCuug---GCAGGCACg -3'
miRNA:   3'- gcAGGGUGcAGGuuucuaUGUCCGUG- -5'
13433 3' -52.3 NC_003409.1 + 128056 0.67 0.954402
Target:  5'- gGUgCCCGCGUUCAGGGGcccaUGCGGGg-- -3'
miRNA:   3'- gCA-GGGUGCAGGUUUCU----AUGUCCgug -5'
13433 3' -52.3 NC_003409.1 + 70643 0.67 0.948495
Target:  5'- cCGUCUCACGUCCGAGGuaauGUGCucuaugaagauguGGUAg -3'
miRNA:   3'- -GCAGGGUGCAGGUUUC----UAUGu------------CCGUg -5'
13433 3' -52.3 NC_003409.1 + 108394 0.68 0.945816
Target:  5'- aG-CCCACcggGUCCuguAAGGAUaGCGGGCGCc -3'
miRNA:   3'- gCaGGGUG---CAGG---UUUCUA-UGUCCGUG- -5'
13433 3' -52.3 NC_003409.1 + 95392 0.68 0.945816
Target:  5'- aCGUCCCGCucagauaaCUGAAGAgcgACAGaGCGCg -3'
miRNA:   3'- -GCAGGGUGca------GGUUUCUa--UGUC-CGUG- -5'
13433 3' -52.3 NC_003409.1 + 46104 0.69 0.907815
Target:  5'- aGUCaCCGCGUCCGAAcGUACcucGCGCc -3'
miRNA:   3'- gCAG-GGUGCAGGUUUcUAUGuc-CGUG- -5'
13433 3' -52.3 NC_003409.1 + 120291 0.69 0.887745
Target:  5'- gGUcCCCugG-CCAAAGAg--GGGCGCa -3'
miRNA:   3'- gCA-GGGugCaGGUUUCUaugUCCGUG- -5'
13433 3' -52.3 NC_003409.1 + 100600 0.7 0.880568
Target:  5'- uGUCCCAUgGUCCAGcgcgGGAaccgGCAGGCc- -3'
miRNA:   3'- gCAGGGUG-CAGGUU----UCUa---UGUCCGug -5'
13433 3' -52.3 NC_003409.1 + 24374 0.7 0.865511
Target:  5'- cCGUCCCACGUgCCGccGcgcgcGCAGuGCGCg -3'
miRNA:   3'- -GCAGGGUGCA-GGUuuCua---UGUC-CGUG- -5'
13433 3' -52.3 NC_003409.1 + 82727 0.7 0.865511
Target:  5'- -aUCCCACGUcCCGGAGGUguuuacggACAGGgAUa -3'
miRNA:   3'- gcAGGGUGCA-GGUUUCUA--------UGUCCgUG- -5'
13433 3' -52.3 NC_003409.1 + 112562 0.71 0.81519
Target:  5'- gGUCCCGCGUCCGGuaAUAUc-GCACa -3'
miRNA:   3'- gCAGGGUGCAGGUUucUAUGucCGUG- -5'
13433 3' -52.3 NC_003409.1 + 74168 0.72 0.787522
Target:  5'- uGUCgCCACGUCUGAGGGaccaucGgAGGCACa -3'
miRNA:   3'- gCAG-GGUGCAGGUUUCUa-----UgUCCGUG- -5'
13433 3' -52.3 NC_003409.1 + 89960 0.72 0.777988
Target:  5'- uCGUUCCACuUCCAAAGAcauUGCAGgGCGg -3'
miRNA:   3'- -GCAGGGUGcAGGUUUCU---AUGUC-CGUg -5'
13433 3' -52.3 NC_003409.1 + 61296 0.73 0.725371
Target:  5'- gGUCCCACugcacggacgcccuGUCCAGAGAggUAGGCGa -3'
miRNA:   3'- gCAGGGUG--------------CAGGUUUCUauGUCCGUg -5'
13433 3' -52.3 NC_003409.1 + 33998 0.74 0.645029
Target:  5'- --cCCCACaa-CAAGGGUACGGGCGCg -3'
miRNA:   3'- gcaGGGUGcagGUUUCUAUGUCCGUG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.